Featured Publications
Methods for mediation analysis with high-dimensional DNA methylation data: Possible choices and comparisons
Clark-Boucher D, Zhou X, Du J, Liu Y, Needham B, Smith J, Mukherjee B. Methods for mediation analysis with high-dimensional DNA methylation data: Possible choices and comparisons. PLOS Genetics 2023, 19: e1011022. PMID: 37934796, PMCID: PMC10655967, DOI: 10.1371/journal.pgen.1011022.Peer-Reviewed Original ResearchConceptsBayesian Sparse Linear Mixed ModelMediation analysisHigh-dimensional mediation analysisMulti-ethnic cohortEpigenetic researchHealth outcomesHigh-dimensional DNA methylation dataLinear mixed modelsDNA methylation dataContinuous outcomesEvaluate DNA methylationDNA methylationMethylation dataDNAm dataMixed modelsDiverse simulationsSeamless implementationModern statistical methodsMediation effectR packageUnited StatesOutcomes
2021
Maternal blood metal concentrations and whole blood DNA methylation during pregnancy in the Early Autism Risk Longitudinal Investigation (EARLI)
Aung M, Bakulski K, Feinberg J, Dou J, Meeker J, Mukherjee B, Loch-Caruso R, Ladd-Acosta C, Volk H, Croen L, Hertz-Picciotto I, Newschaffer C, Fallin M. Maternal blood metal concentrations and whole blood DNA methylation during pregnancy in the Early Autism Risk Longitudinal Investigation (EARLI). Epigenetics 2021, 17: 253-268. PMID: 33794742, PMCID: PMC8920182, DOI: 10.1080/15592294.2021.1897059.Peer-Reviewed Original ResearchConceptsBlood metal concentrationsDNA methylation sitesDNA methylationMetal concentrationsWhole blood DNA methylationK arrayMethylation sitesBlood DNA methylationIllumina 450K arrayGene ontology analysisPotential biomarkers of exposurePrenatal metal exposureCellular metabolic pathwaysDownstream gene pathwaysCell type compositionCalcium ion bindingEarly Autism Risk Longitudinal InvestigationBiomarkers of exposureInductively coupled plasma mass spectrometryNervous system developmentAssociated with hypermethylationMetal exposureIndividual metalsPlasma mass spectrometryOntology analysis
2015
Life course socioeconomic status and DNA methylation in genes related to stress reactivity and inflammation: The multi-ethnic study of atherosclerosis
Needham B, Smith J, Zhao W, Wang X, Mukherjee B, Kardia S, Shively C, Seeman T, Liu Y, Roux A. Life course socioeconomic status and DNA methylation in genes related to stress reactivity and inflammation: The multi-ethnic study of atherosclerosis. Epigenetics 2015, 10: 958-969. PMID: 26295359, PMCID: PMC4844216, DOI: 10.1080/15592294.2015.1085139.Peer-Reviewed Original ResearchConceptsMulti-Ethnic Study of AtherosclerosisAssociated with DNA methylationSocioeconomic statusStress-related genesMulti-Ethnic StudyStudy of AtherosclerosisDNA methylationLow adult socioeconomic statusLife course socioeconomic statusLow childhood socioeconomic statusMeasures of socioeconomic statusAdult socioeconomic statusSocial patterning of diseaseChildhood socioeconomic statusGene expressionLow socioeconomic statusLife course measuresAssociated with gene expressionInflammation-related genesFunctional consequences of alterationsDNA methylation measurementsNon-HispanicHispanic participantsPotential functional consequencesEpigenetic data
2011
CHARACTERIZATION OF GLOBAL DNA METHYLATION AT LINE-1 IN A COHORT OF URBAN ASTHMATIC CHILDREN WITH A GRADIENT OF EXPOSURE TO HIGHWAYS
Lewis T, Rozek L, Van Zomeren-Dohm A, Mukherjee B, Ren X, Mentz G, Robins T, Hughes E. CHARACTERIZATION OF GLOBAL DNA METHYLATION AT LINE-1 IN A COHORT OF URBAN ASTHMATIC CHILDREN WITH A GRADIENT OF EXPOSURE TO HIGHWAYS. ISEE Conference Abstracts 2011, 2011 DOI: 10.1289/isee.2011.01414.Peer-Reviewed Original Research